Every time you subscribe to a new mod through the Steam workshop, launch through the steam client to bring up the pre-launch menu - a dialogue appears at the bottom telling you what is being checked for new files or downloaded - wait while it downloads your mods then select the Data Files option to make sure the mods you want to use are checked. Then exit and launch the game with the skse_loader.

Every time you subscribe to a new mod through the Steam workshop, launch through the steam client to bring up the pre-launch menu - a dialogue appears at the bottom telling you what is being checked for new files or downloaded - wait while it downloads your mods then select the Data Files option to make sure the mods you want to use are checked. Then exit and launch the game with the skse_loader.